Project Merge Analyses runs for each experiment when running `isabl process-finished`

isabl_cli version: │isabl, version 0.1.0
Python version: Python 3.11.0
Operating System: linux

Description

When running isabl process-finished to complete a group of analyses, the project-level merge logic is run after each is completed. This is very time consuming, and would probably be best run after the command is finished to avoid wasting resources.

What I Did

isabl process-finished -fi projects 20 Isabl runs the merge analysis after processing each analysis.

New feature

Perhaps a fix could be to disable trigger_analyses_merge when executing patch_instance from the process-finished command. Instead, the process-finished cmd could keep a list of analysis keys, individuals, and projects affected by the query and run those after updaing the status

# not actual code
analyses_processsed = {pks=[], indvs=[], projects=[]}
for analysis in analyses:
    patch_instance(status="SUCCEEDED", run_triggers=False)
    analyses_processsed["pks"].append(analysis.pk)
    analyses_processsed["indvs"].append(analysis.individual)
    analyses_processsed["projects"].extend(analysis.projects)  
for proj in set(analyses_processed["projects"]):
    run_project_merge_analyses(proj)
for indv in set(analyses_processed["indvss"]):
    run_individual_merge_analyses(indv)

papaemmelab / isabl_cli